1O9B QUINATE/SHIKIMATE DEHYDROGENASE YDIB COMPLEXED WITH NADH date
authors Michel, G., Cygler, M.
compound source
symmetry
R_factor
R_Free 0.294
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.50
ligand MSE, NAI, PO4 enzyme
related structures by homologous chain: 1NPD
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructures of shikimate dehydrogenase AroE and its Paralog YdiB. A common structural framework for different activities., Michel G, Roszak AW, Sauve V, Maclean J, Matte A, Coggins JR, Cygler M, Lapthorn AJ, J Biol Chem 2003 May 23;278(21):19463-72. PMID:12637497
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (102 Kb) [Save to disk]
  • Biological Unit Coordinates (1o9b.pdb1.gz) 49 Kb
  • Biological Unit Coordinates (1o9b.pdb2.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 1O9B
  • CSU: Contacts of Structural Units for 1O9B
  • Likely Quarternary Molecular Structure file(s) for 1O9B
  • Structure Factors (145 Kb)
  • Retrieve 1O9B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1O9B from S2C, [Save to disk]
  • Re-refined 1o9b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1O9B in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1O9B
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1O9B, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1o9ba1, region A:107-287 [Jmol] [rasmolscript] [script source]
        - Domain d1o9ba2, region A:7-106 [Jmol] [rasmolscript] [script source]
        - Domain d1o9bb1, region B:107-287 [Jmol] [rasmolscript] [script source]
        - Domain d1o9bb2, region B:7-106 [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1o9b_A] [1o9b] [1o9b_B]
  • SWISS-PROT database: [P0A6D5]
  • Domain organization of [YDIB_ECOLI] by SWISSPFAM
  • Other resources with information on 1O9B
  • Community annotation for 1O9B at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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